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dc.contributor.authorMedina-Rivera, Alejandraes_ES
dc.contributor.authorDefrance, Matthieues_ES
dc.contributor.authorSand, Olivieres_ES
dc.contributor.authorHerrmann, Carles_ES
dc.contributor.authorCastro-Mondragón, Jaime A.es_ES
dc.contributor.authorDelerce, Jeremyes_ES
dc.contributor.authorJaeger, Sébastienes_ES
dc.contributor.authorBlanchet, Christophees_ES
dc.contributor.authorVincens, Pierrees_ES
dc.contributor.authorCaron, Christophees_ES
dc.contributor.authorStaines, Daniel M.es_ES
dc.contributor.authorContreras-Moreira, Brunoes_ES
dc.contributor.authorArtufel, Mariees_ES
dc.contributor.authorCharbonnier-Khamvongsa, Luciees_ES
dc.contributor.authorHernandez, Célinees_ES
dc.contributor.authorThieffry, Denises_ES
dc.contributor.authorThomas-Chollier, Morganees_ES
dc.contributor.authorvan Helden, Jacqueses_ES
dc.identifier.citationMedina-Rivera A, Defrance M, Sand O, Herrmann C, Castro-Mondragon JA, Delerce J, Jaeger S, Blanchet C, Vincens P, Caron C, Staines DM, Contreras-Moreira B, Artufel M, Charbonnier-Khamvongsa L, Hernandez C, Thieffry D, Thomas-Chollier M, van Helden J . RSAT 2015: Regulatory sequence analysis tools. Nucleic Acids Research, Web Server Issue 43 (W1): W50–W56 (2015)es_ES
dc.description12 Pags.- 1 Tabl.- 1 Fig.es_ES
dc.description.abstractRSAT (Regulatory Sequence Analysis Tools) is a modular software suite for the analysis of cisregulatory elements in genome sequences. Its main applications are (i) motif discovery, appropriate to genome-wide data sets like ChIP-seq, (ii) transcription factor binding motif analysis (quality assessment, comparisons and clustering), (iii) comparative genomics and (iv) analysis of regulatory variations. Nine new programs have been added to the 43 described in the 2011 NAR Web Software Issue, including a tool to extract sequences from a list of coordinates (fetch-sequences from UCSC), novel programs dedicated to the analysis of regulatory variants from GWAS or population genomics (retrieve-variationseq and variation-scan), a program to cluster motifs and visualize the similarities as trees (matrixclustering). To deal with the drastic increase of sequenced genomes, RSAT public sites have been reorganized into taxon-specific servers. The suite is well-documented with tutorials and published protocols. The software suite is available through Web sites, SOAP/WSDL Web services, virtual machines and stand-alone programs at http://www.rsat.eu/.es_ES
dc.description.sponsorshipThis work was supported by the EU-funded COST action [BM1006 "SEQAHEAD - Next Generation Sequencing Data Analysis Network"]; FP7 MICROME Collaborative Project [Microbial genomics and bio-informatics", contract number 222886-2]; Programa Euroinvestigación/Plant KBBE 2008 (EUI2008-03612) (BCM); the GIS IBiSA and France Génomique National infrastructure, funded as part of the « Investissements d’Avenir » program managed by the French Agence Nationale pour la Recherche (contract ANR-10-INBS-09) ; projects iBone & EchiNodal funded by the French Agence Nationale pour la Recherche. JCM has been supported by master fellowship from CONACyT-Mexico and a “Contrat Doctoral d'Aix-Marseille Université attribué sur Concours EDSVS ». AMR was funded by the Consejo Nacional de Ciencia y Tecnología (CONACYT) and a CIHR Training grant (GET-101831) in Genetic Epidemiology and Statistical Genetics.es_ES
dc.publisherOxford University Presses_ES
dc.relation.isversionofPublisher's versiones_ES
dc.subjecttranscriptional regulationes_ES
dc.subjectcis-regulatory elementses_ES
dc.subjectcis-regulatory modules (CRMs)es_ES
dc.subjectmotif discoveryes_ES
dc.subjectregulatory variationses_ES
dc.subjectcomparative genomicses_ES
dc.titleRSAT 2015: Regulatory sequence analysis toolses_ES
dc.description.peerreviewedPeer reviewedes_ES
dc.contributor.funderEuropean Commissiones_ES
dc.contributor.funderCentre National de la Recherche Scientifique (France)es_ES
dc.contributor.funderConsejo Nacional de Ciencia y Tecnología (México)es_ES
dc.contributor.funderAix-Marseille Universitées_ES
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